Gene loci information

Transcript annotation

  • This transcript has been annotated as Aryl hydrocarbon receptor nuclear translocator-like protein.

Parent gene

Gene structure

  • The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.

Chromosome Gene Transcript Category ID Start End
chr_1 g14012 g14012.t1 TSS g14012.t1 33981622 33981622
chr_1 g14012 g14012.t1 isoform g14012.t1 33981724 33984316
chr_1 g14012 g14012.t1 exon g14012.t1.exon1 33981724 33981761
chr_1 g14012 g14012.t1 cds g14012.t1.CDS1 33981724 33981761
chr_1 g14012 g14012.t1 exon g14012.t1.exon2 33982122 33982798
chr_1 g14012 g14012.t1 cds g14012.t1.CDS2 33982122 33982798
chr_1 g14012 g14012.t1 exon g14012.t1.exon3 33982932 33983219
chr_1 g14012 g14012.t1 cds g14012.t1.CDS3 33982932 33983219
chr_1 g14012 g14012.t1 exon g14012.t1.exon4 33983295 33983445
chr_1 g14012 g14012.t1 cds g14012.t1.CDS4 33983295 33983445
chr_1 g14012 g14012.t1 exon g14012.t1.exon5 33983506 33983760
chr_1 g14012 g14012.t1 cds g14012.t1.CDS5 33983506 33983760
chr_1 g14012 g14012.t1 exon g14012.t1.exon6 33983824 33984077
chr_1 g14012 g14012.t1 cds g14012.t1.CDS6 33983824 33984077
chr_1 g14012 g14012.t1 exon g14012.t1.exon7 33984141 33984316
chr_1 g14012 g14012.t1 cds g14012.t1.CDS7 33984141 33984316
chr_1 g14012 g14012.t1 TTS g14012.t1 33985147 33985147

Sequences

>g14012.t1 Gene=g14012 Length=1839
ATGGAGGAATCTACGGTCGATAAAGAGCGATATGCGAGTCGAGAGAACCATTGTGAAATT
GAGAGAAGACGACGTAATAAAATGACAGCTTACATTACTGAACTCTCTGATATGGTGCCG
ACATGCAGCGCTCTTGCTCGAAAACCTGATAAACTTACAATTTTAAGAATGGCAGTTGCA
CATATGAAAGCACTTCGAGGCACAGGCAATACAAATACAGATGGAAGCTACAAACCATCT
TTTCTAACAGATCAAGAGTTGAAGCATTTAATTTTGGAAGCAGCTGATGGATTTCTATTT
GTTGTGTCATGCGACACTGGTCGTATTATATACGTCTCAGATTCAGTTGCACCTGTTTTG
AATCACTCACAAAATGACTGGTATGGTTCATCTCTTTTTGAATTAGTGCATCCAGACGAT
ATTGAAAAAGTTCGTGAGCAATTATCCACACAAGAACCACAAAATTCTGGTCGTATTTTG
GACTTAAAAACTGGAACTGTCAAAAAAGAAGGCCATCAATCATCAATGAGATTGTGCATG
GGATCACGCAGAGGCTTCATTTGTCGAATGAAAATTGGAAATATCAATCCAGAGAACATG
GCCGTTGGGCATCTTAATCGATTGAAACAACGCAATTCTCTCGGACCTTCTAGAGATGGA
CAAAACTATGCAGTTGTTCATTGCACTGGATATATTAAAAACTGGCCACCGACTGGCGTA
CAACTCGATCGGCAAAATGAAGATGACTTACATTCCTCACATTGCTGCTTGGTCGCTATC
GGTCGTTTACAAGTTACATCGACTGCAAATTCTGCTGATTTAAATGGTTCCAATAATCAA
TCTGAATTTATTTCTCGTCACTCAATGGATGGCAAATTTTCATTTGTTGATCAACGTGTC
ATGAACATACTTGGATATGTTCCCACTGATTTATTAGGAAAAAGCTGCTACGATTTTTTC
CATCCTGAAGATCAGAATCATATGAAAGAAAATTTTGATCAAGTTCTCAAGCAAAAAGGA
CAAATGTTTTCCGTCATGTATCGTTTTCGTGCTAAAAATCGAGAATGGGTCTGGCTTCGC
ACCCAAGCATATGCATTTTTAAATCCTTACAATGACGAAGTGGAATATATTGTTTGCACA
AATAGTTCTGCAAAAACGTTACATAATGTGGCTCCTGATAATGGACAACCATTAGATGAA
CCAGTTTATCATCAGCCAGCGCCTGGACTTGATTACACAATGCAAAGTCGTCGCGAATCG
CAATCTTATAATCCACATGGATTAATGTCTCATATCACAGTGCCACCTCAAGCAACTCCT
CAAGCTCCAAACTCAAGTATTCAACAACGACCGAATAGCGCACAAAATACTGTTCAATAT
CATTATGAGCCAACACCATCACCTATACAATACGGTTCACCTGGAAATCGTACTCCCGTT
GGTATGACCAAGAGCAGTCAAAATGCATCACCGACTCCATCGGCAACACAAACCTGGACT
ATGCGTCAGCAGCAACAACAACCACCACCTGAGAGTTATCAGTATAATCAATTGAGCCCT
TCACGATCGCCGAGTGGTCCAACTTATACGCAGCTTAGTAGTGGAATTCAATCTCGGCCG
GCTTATAATGCCACAACTACAACACAACAAGCTCCACAACCTGGATATTATGGATGGCCT
CATGCAGAAGGAAGTGCTCCTCATCCTTCAGTACCTACTGGTCAACATCCACAACAAGGA
CAAGAATTGTCGGATATGCTTCAAATGCTTGGTGATCAATCGGGTCCAGCAACATTCGAA
GATCTCAACATTCATATGTTTTCCGGACAGTTTGAGTGA

>g14012.t1 Gene=g14012 Length=612
MEESTVDKERYASRENHCEIERRRRNKMTAYITELSDMVPTCSALARKPDKLTILRMAVA
HMKALRGTGNTNTDGSYKPSFLTDQELKHLILEAADGFLFVVSCDTGRIIYVSDSVAPVL
NHSQNDWYGSSLFELVHPDDIEKVREQLSTQEPQNSGRILDLKTGTVKKEGHQSSMRLCM
GSRRGFICRMKIGNINPENMAVGHLNRLKQRNSLGPSRDGQNYAVVHCTGYIKNWPPTGV
QLDRQNEDDLHSSHCCLVAIGRLQVTSTANSADLNGSNNQSEFISRHSMDGKFSFVDQRV
MNILGYVPTDLLGKSCYDFFHPEDQNHMKENFDQVLKQKGQMFSVMYRFRAKNREWVWLR
TQAYAFLNPYNDEVEYIVCTNSSAKTLHNVAPDNGQPLDEPVYHQPAPGLDYTMQSRRES
QSYNPHGLMSHITVPPQATPQAPNSSIQQRPNSAQNTVQYHYEPTPSPIQYGSPGNRTPV
GMTKSSQNASPTPSATQTWTMRQQQQQPPPESYQYNQLSPSRSPSGPTYTQLSSGIQSRP
AYNATTTTQQAPQPGYYGWPHAEGSAPHPSVPTGQHPQQGQELSDMLQMLGDQSGPATFE
DLNIHMFSGQFE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
21 g14012.t1 CDD cd18947 bHLH-PAS_ARNT 8 73 1.21718E-42
23 g14012.t1 CDD cd00130 PAS 95 188 6.9485E-11
22 g14012.t1 CDD cd00130 PAS 281 378 1.60649E-19
18 g14012.t1 Gene3D G3DSA:4.10.280.10 HLH 2 68 2.6E-20
19 g14012.t1 Gene3D G3DSA:3.30.450.20 - 75 270 1.4E-76
20 g14012.t1 Gene3D G3DSA:3.30.450.20 - 274 398 3.7E-39
28 g14012.t1 MobiDBLite mobidb-lite consensus disorder prediction 480 550 -
4 g14012.t1 PANTHER PTHR23042:SF6 ARYL HYDROCARBON RECEPTOR NUCLEAR TRANSLOCATOR 2 3 574 3.3E-209
5 g14012.t1 PANTHER PTHR23042 CIRCADIAN PROTEIN CLOCK/ARNT/BMAL/PAS 3 574 3.3E-209
7 g14012.t1 PRINTS PR00785 Nuclear translocator signature 27 42 4.3E-94
10 g14012.t1 PRINTS PR00785 Nuclear translocator signature 47 67 4.3E-94
14 g14012.t1 PRINTS PR00785 Nuclear translocator signature 77 100 4.3E-94
6 g14012.t1 PRINTS PR00785 Nuclear translocator signature 102 121 4.3E-94
12 g14012.t1 PRINTS PR00785 Nuclear translocator signature 134 152 4.3E-94
9 g14012.t1 PRINTS PR00785 Nuclear translocator signature 180 193 4.3E-94
11 g14012.t1 PRINTS PR00785 Nuclear translocator signature 223 242 4.3E-94
13 g14012.t1 PRINTS PR00785 Nuclear translocator signature 255 271 4.3E-94
8 g14012.t1 PRINTS PR00785 Nuclear translocator signature 282 299 4.3E-94
2 g14012.t1 Pfam PF00010 Helix-loop-helix DNA-binding domain 14 65 2.0E-13
1 g14012.t1 Pfam PF00989 PAS fold 89 191 2.6E-12
3 g14012.t1 Pfam PF14598 PAS domain 281 382 1.0E-23
30 g14012.t1 ProSiteProfiles PS50888 Myc-type, basic helix-loop-helix (bHLH) domain profile. 12 65 16.514
32 g14012.t1 ProSiteProfiles PS50112 PAS repeat profile. 84 155 14.353
31 g14012.t1 ProSiteProfiles PS50112 PAS repeat profile. 288 339 16.992
24 g14012.t1 SMART SM00353 finulus 18 71 1.2E-13
26 g14012.t1 SMART SM00091 pas_2 86 153 1.5E-11
25 g14012.t1 SMART SM00091 pas_2 271 337 3.8E-9
27 g14012.t1 SMART SM00086 pac_2 344 387 2.9E-4
17 g14012.t1 SUPERFAMILY SSF47459 HLH, helix-loop-helix DNA-binding domain 14 97 7.46E-15
16 g14012.t1 SUPERFAMILY SSF55785 PYP-like sensor domain (PAS domain) 96 238 5.59E-16
15 g14012.t1 SUPERFAMILY SSF55785 PYP-like sensor domain (PAS domain) 282 381 1.54E-29
29 g14012.t1 TIGRFAM TIGR00229 sensory_box: PAS domain S-box protein 287 363 6.7E-8

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0005634 nucleus CC
GO:0006355 regulation of transcription, DNA-templated BP
GO:0005667 transcription regulator complex CC
GO:0005737 cytoplasm CC
GO:0003700 DNA-binding transcription factor activity MF
GO:0046983 protein dimerization activity MF

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

Expression

Transcript expression in Pv11 cells

TPM values are indicated as average +/- STDEV.

Differential expression

Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.

Raw TPM values